APF20219.1 protein (Caldithrix abyssi) - STRING interaction network

Nodes:

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splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

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query proteins and first shell of interactors

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second shell of interactors

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proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:

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Gene Fusion

Cooccurrence

Coexpression

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[Homology]

Score

APF20219.1

Peptidase family M1. (897 aa)

Predicted Functional Partners:

APF18935.1

0.599

APF19190.1

0.487

APF18496.1

0.484

APF20036.1

0.427

APF20104.1

0.423

Your Current Organism:

Caldithrix abyssi

NCBI taxonomy Id: 880073
Other names: C. abyssi DSM 13497, Caldithrix abyssi DSM 13497, Caldithrix abyssi LF13, Caldithrix abyssi str. DSM 13497, Caldithrix abyssi strain DSM 13497

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
APF18496.1	APF20036.1	Cabys_1747	Cabys_3288	Dipeptidyl-peptidase-4.	PA domain-containing protein.	0.638
APF18496.1	APF20219.1	Cabys_1747	Cabys_3473	Dipeptidyl-peptidase-4.	Peptidase family M1.	0.484
APF18935.1	APF20104.1	Cabys_2186	Cabys_3356	Metallopeptidase.	PDZ domain-containing protein.	0.478
APF18935.1	APF20219.1	Cabys_2186	Cabys_3473	Metallopeptidase.	Peptidase family M1.	0.599
APF19190.1	APF20219.1	Cabys_2441	Cabys_3473	Glycosylasparaginase precursor, Threonine peptidase, MEROPS family T02.	Peptidase family M1.	0.487
APF20036.1	APF18496.1	Cabys_3288	Cabys_1747	PA domain-containing protein.	Dipeptidyl-peptidase-4.	0.638
APF20036.1	APF20219.1	Cabys_3288	Cabys_3473	PA domain-containing protein.	Peptidase family M1.	0.427
APF20104.1	APF18935.1	Cabys_3356	Cabys_2186	PDZ domain-containing protein.	Metallopeptidase.	0.478
APF20104.1	APF20219.1	Cabys_3356	Cabys_3473	PDZ domain-containing protein.	Peptidase family M1.	0.423
APF20219.1	APF18496.1	Cabys_3473	Cabys_1747	Peptidase family M1.	Dipeptidyl-peptidase-4.	0.484
APF20219.1	APF18935.1	Cabys_3473	Cabys_2186	Peptidase family M1.	Metallopeptidase.	0.599
APF20219.1	APF19190.1	Cabys_3473	Cabys_2441	Peptidase family M1.	Glycosylasparaginase precursor, Threonine peptidase, MEROPS family T02.	0.487
APF20219.1	APF20036.1	Cabys_3473	Cabys_3288	Peptidase family M1.	PA domain-containing protein.	0.427
APF20219.1	APF20104.1	Cabys_3473	Cabys_3356	Peptidase family M1.	PDZ domain-containing protein.	0.423

Network Stats

number of nodes:

11

number of edges:

18

average node degree:

3.27

avg. local clustering coefficient:

0.813

expected number of edges:

10

PPI enrichment p-value:

0.0158

your network has significantly more interactions
than expected (what does that mean?)

Functional enrichments in your networkNote: some enrichments may be expected here (why?)
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Biological Process (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0016444

Somatic cell DNA recombination

3 of 3

3.31

3.17

1.89e-06

GO:0070131

Positive regulation of mitochondrial translation

3 of 6

3.01

3.05

2.79e-06

GO:0007004

Telomere maintenance via telomerase

3 of 11

2.74

2.81

6.39e-06

GO:0006310

DNA recombination

6 of 202

1.78

2.64

4.50e-07

GO:0051321

Meiotic cell cycle

5 of 129

1.9

2.58

1.89e-06

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0043047

Single-stranded telomeric DNA binding

3 of 7

2.94

2.8

7.85e-06

GO:0008408

3-5 exonuclease activity

4 of 41

2.3

2.65

6.90e-06

GO:0000175

3-5-exoribonuclease activity

3 of 17

2.56

2.47

2.48e-05

GO:0003684

Damaged DNA binding

3 of 31

2.29

2.15

7.78e-05

GO:0003676

Nucleic acid binding

9 of 2305

0.9

1.78e-05

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005662

DNA replication factor A complex

3 of 4

3.18

3.09

2.48e-06

GO:0043596

Nuclear replication fork

4 of 44

2.27

2.85

2.48e-06

GO:0000781

Chromosome, telomeric region

3 of 46

2.12

1.98

0.00013

GO:0000794

Condensed nuclear chromosome

2 of 23

2.25

1.34

0.0031

GO:0005634

Nucleus

9 of 3364

0.74

0.65

0.00013

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:12858

HDR through Single Strand Annealing (SSA), and DNA damage sensor activity

7 of 42

2.53

6.43

1.08e-13

CL:12864

HDR through Single Strand Annealing (SSA), and Checkpoint clamp complex

5 of 17

2.78

5.42

5.55e-11

CL:12865

Mixed, incl. Checkpoint clamp complex, and FATC domain

3 of 12

2.71

2.88

4.53e-06

CL:12888

RecQ family helicase-topoisomerase III complex, and DNA replication factor A complex

2 of 5

2.91

1.82

0.00050

CL:12929

Mixed, incl. DNA topological change, and RecQ mediated genome instability protein 1, N-terminal

2 of 6

2.83

1.76

0.00063

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03018

RNA degradation

4 of 132

1.79

1.92

6.09e-05

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-5685938

HDR through Single Strand Annealing (SSA)

7 of 42

2.53

6.86

1.16e-14

MAP-5693567

HDR through Homologous Recombination (HRR) or Single Strand Annealing (SSA)

9 of 119

2.19

6.54

2.45e-16

MAP-5693538

Homology Directed Repair

9 of 131

2.15

6.36

2.81e-16

MAP-69473

G2/M DNA damage checkpoint

7 of 59

2.38

6.2

8.37e-14

MAP-6804756

Regulation of TP53 Activity through Phosphorylation

7 of 60

2.38

6.18

8.37e-14

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0043596

Nuclear replication fork

5 of 28

2.56

4.48

2.24e-09

GOCC:0005662

DNA replication factor A complex

3 of 5

3.09

3.19

1.59e-06

GOCC:0031298

Replication fork protection complex

2 of 3

3.13

2.06

0.00019

GOCC:0043227

Membrane-bounded organelle

11 of 4151

0.73

0.71

2.17e-06

GOCC:0043231

Intracellular membrane-bounded organelle

10 of 3677

0.74

0.69

2.17e-05

(more ...)

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF16900

Replication protein A OB domain

2 of 2

3.31

1.6

0.0013

PF04057

Replication factor-A protein 1, N-terminal domain

2 of 2

3.31

1.6

0.0013

PF01336

OB-fold nucleic acid binding domain

2 of 8

2.71

1.36

0.0033

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR002562

3-5 exonuclease domain

3 of 6

3.01

2.57

2.11e-05

IPR031657

Replication protein A, OB domain

2 of 2

3.31

1.51

0.0019

IPR007199

Replication factor-A protein 1, N-terminal

2 of 2

3.31

1.51

0.0019

IPR004365

OB-fold nucleic acid binding domain, AA-tRNA synthetase-type

2 of 8

2.71

1.19

0.0070

IPR012337

Ribonuclease H-like superfamily

3 of 108

1.75

0.99

0.0108

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00474

3-5 exonuclease

2 of 3

3.13

1.75

0.00069

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

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